introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

7 rows where transcript_id = 10944849

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Suggested facets: dinucleotide_pair, score, phase

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
60661806 GT-AG 0 1.000000099473604e-05 2547 rna-XM_020818330.2 10944849 1 327901 330447 Dendrobium catenatum 906689 TAG|GTAAAGGAAT...GACTTTTCAGTA/TGACTTTTCAGT...TTCAG|CAT 2 1 25.043
60661807 GT-AG 0 0.0004057687514144 2468 rna-XM_020818330.2 10944849 2 330541 333008 Dendrobium catenatum 906689 CAG|GTGTATTTCC...CTACTTTTAATA/TGTTTTCTCATA...TACAG|TGA 2 1 32.991
60661808 GC-AG 0 1.000000099473604e-05 121 rna-XM_020818330.2 10944849 3 333221 333341 Dendrobium catenatum 906689 GAG|GCAAGCCTCG...TATTTCTAAGAG/TTATTTCTAAGA...CACAG|GGG 1 1 51.111
60661809 GT-AG 0 0.0036233145884058 82 rna-XM_020818330.2 10944849 4 333487 333568 Dendrobium catenatum 906689 GCG|GTACATTATA...CTGCTTTTGATT/CTTGGTTTGATT...TATAG|AAA 2 1 63.504
60661810 GT-AG 0 3.5000669212046215e-05 1087 rna-XM_020818330.2 10944849 5 333642 334728 Dendrobium catenatum 906689 CAG|GTGTTGTTAA...TCTTCTTTATCA/CTCTTCTTTATC...GCCAG|TGT 0 1 69.744
60661811 GT-AG 0 0.1122821558850881 207 rna-XM_020818330.2 10944849 6 334876 335082 Dendrobium catenatum 906689 AAG|GTTTCTTTTC...GAAACCTAAAAC/CGAAACCTAAAA...AATAG|TTC 0 1 82.308
60661812 GT-AG 0 1.000000099473604e-05 169 rna-XM_020818330.2 10944849 7 335224 335392 Dendrobium catenatum 906689 CAG|GTTTGTCTAA...ATATATTTATTT/CATATATTTATT...TGCAG|GAT 0 1 94.359

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);